SpRY-Cas9:gRNA complex bound to non-target DNA with 10 bp R-loop
Hibshman GN, Bravo JPK, Hooper MM, Dangerfield TL, Zhang H, Finkelstein IJ, Johnson KA, Taylor DW
Nat Commun (2024) 15 pp. 3663-3663 [ DOI: doi:10.1038/s41467-024-47830-3 Pubmed: 38688943 ]
- Grna (28 kDa, RNA from Streptococcus pyogenes)
- Ternary complex of spry-cas9 with grna and non-target dna with 10 bp r-loop (211 kDa, Complex from Streptococcus pyogenes)
- Nts (2 kDa, DNA from Escherichia phage Lambda)
- Crispr-associated endonuclease cas9/csn1 (158 kDa, Protein from Streptococcus pyogenes)
- Ts (6 kDa, DNA from Escherichia phage Lambda)
SpRY-Cas9:gRNA complex targeting TGG PAM DNA
Resolution: 3.26 Å
EM Method: Single-particle
Fitted PDBs: 8spq
Q-score: 0.431
Hibshman GN, Bravo JPK, Hooper MM, Dangerfield TL, Zhang H, Finkelstein IJ, Johnson KA, Taylor DW
Nat Commun (2024) 15 pp. 3663-3663 [ Pubmed: 38688943 DOI: doi:10.1038/s41467-024-47830-3 ]
- Crispr-associated endonuclease cas9/csn1 (159 kDa, Protein from Streptococcus pyogenes serotype M1)
- Grna (31 kDa, RNA from Streptococcus pyogenes)
- Magnesium ion (24 Da, Ligand)
- Ts (5 kDa, DNA from Escherichia phage Lambda)
- Ts (16 kDa, DNA from Escherichia phage Lambda)
- Ternary complex of spry-cas9 with lambda 1 grna and lambda 1 dna (211 kDa, Complex from Streptococcus pyogenes)
- Nts (5 kDa, DNA from Escherichia phage Lambda)
SpRY-Cas9:gRNA complex targeting TTC PAM DNA
Resolution: 3.69 Å
EM Method: Single-particle
Fitted PDBs: 8sqh
Q-score: 0.379
Hibshman GN, Bravo JPK, Hooper MM, Dangerfield TL, Zhang H, Finkelstein IJ, Johnson KA, Taylor DW
Nat Commun (2024) 15 pp. 3663-3663 [ Pubmed: 38688943 DOI: doi:10.1038/s41467-024-47830-3 ]
- Nts (16 kDa, DNA from Escherichia phage Lambda)
- Magnesium ion (24 Da, Ligand)
- Crispr-associated endonuclease cas9/csn1 (159 kDa, Protein from Streptococcus pyogenes)
- Ternary complex of spry-cas9 with lambda 1 grna and lambda 1 dna oligo (211 kDa, Complex from Streptococcus pyogenes)
- Ts (4 kDa, DNA from Escherichia phage Lambda)
- Grna (31 kDa, RNA from Streptococcus pyogenes)
- Ts (5 kDa, DNA from Escherichia phage Lambda)
SpRY-Cas9:gRNA complex targeting TAC PAM DNA
Resolution: 2.79 Å
EM Method: Single-particle
Fitted PDBs: 8srs
Q-score: 0.521
Hibshman GN, Bravo JPK, Hooper MM, Dangerfield TL, Zhang H, Finkelstein IJ, Johnson KA, Taylor DW
Nat Commun (2024) 15 pp. 3663-3663 [ Pubmed: 38688943 DOI: doi:10.1038/s41467-024-47830-3 ]
- Ts (3 kDa, DNA from Escherichia phage Lambda)
- Crispr-associated endonuclease cas9/csn1 (159 kDa, Protein from Streptococcus pyogenes)
- Grna (31 kDa, RNA from Streptococcus pyogenes)
- Magnesium ion (24 Da, Ligand)
- Nts (16 kDa, DNA from Escherichia phage Lambda)
- Ts (5 kDa, DNA from Escherichia phage Lambda)
- Water (18 Da, Ligand)
- Ternary complex of spry-cas9 with lambda 1 grna and lambda 1 dna (211 kDa, Complex from Streptococcus pyogenes)
SpRY-Cas9:gRNA complex targeting TAC PAM DNA with 0 bp R-loop
Resolution: 3.1 Å
EM Method: Single-particle
Fitted PDBs: 8t6o
Q-score: 0.387
Hibshman GN, Bravo JPK, Hooper MM, Dangerfield TL, Zhang H, Finkelstein IJ, Johnson KA, Taylor DW
Nat Commun (2024) 15 pp. 3663-3663 [ Pubmed: 38688943 DOI: doi:10.1038/s41467-024-47830-3 ]
- Ts (16 kDa, DNA from Escherichia phage Lambda)
- Crispr-associated endonuclease cas9/csn1 (159 kDa, Protein from Streptococcus pyogenes)
- Nts (16 kDa, DNA from Escherichia phage Lambda)
- Ternary complex of spry-cas9 with grna and nac pam dna after one minute of dna incubation with 0 bp r-loop (211 kDa, Complex from Streptococcus pyogenes)
- Grna (27 kDa, RNA from Streptococcus pyogenes)
SpRY-Cas9:gRNA complex targeting TAC PAM DNA with 2 bp R-loop
Resolution: 3.15 Å
EM Method: Single-particle
Fitted PDBs: 8t6p
Q-score: 0.402
Hibshman GN, Bravo JPK, Hooper MM, Dangerfield TL, Zhang H, Finkelstein IJ, Johnson KA, Taylor DW
Nat Commun (2024) 15 pp. 3663-3663 [ Pubmed: 38688943 DOI: doi:10.1038/s41467-024-47830-3 ]
- Nts (3 kDa, DNA from Escherichia phage Lambda)
- Ts (3 kDa, DNA from Escherichia phage Lambda)
- Grna (28 kDa, RNA from Streptococcus pyogenes)
- Crispr-associated endonuclease cas9/csn1 (159 kDa, Protein from Streptococcus pyogenes)
- Ternary complex of spry-cas9 with grna and nac pam dna after one minute of dna incubation with 2 bp r-loop (211 kDa, Complex from Streptococcus pyogenes)
SpRY-Cas9:gRNA complex targeting TAC PAM DNA with 10 bp R-loop
Resolution: 3.28 Å
EM Method: Single-particle
Fitted PDBs: 8t6s
Q-score: 0.334
Hibshman GN, Bravo JPK, Hooper MM, Dangerfield TL, Zhang H, Finkelstein IJ, Johnson KA, Taylor DW
Nat Commun (2024) 15 pp. 3663-3663 [ Pubmed: 38688943 DOI: doi:10.1038/s41467-024-47830-3 ]
- Nts (2 kDa, DNA from Escherichia phage Lambda)
- Crispr-associated endonuclease cas9/csn1 (159 kDa, Protein from Streptococcus pyogenes)
- Grna (29 kDa, RNA from Streptococcus pyogenes)
- Ternary complex of spry-cas9 with grna and nac pam dna after one minute of dna incubation with 10 bp r-loop (211 kDa, Complex from Streptococcus pyogenes)
- Ts (6 kDa, DNA from Escherichia phage Lambda)
SpRY-Cas9:gRNA complex targeting TAC PAM DNA with 13 bp R-loop
Resolution: 3.04 Å
EM Method: Single-particle
Fitted PDBs: 8t6t
Q-score: 0.44
Hibshman GN, Bravo JPK, Hooper MM, Dangerfield TL, Zhang H, Finkelstein IJ, Johnson KA, Taylor DW
Nat Commun (2024) 15 pp. 3663-3663 [ Pubmed: 38688943 DOI: doi:10.1038/s41467-024-47830-3 ]
- Ternary complex of spry-cas9 with grna and nac pam dna after one minute of dna incubation with 13 bp r-loop (211 kDa, Complex from Streptococcus pyogenes)
- Crispr-associated endonuclease cas9/csn1 (159 kDa, Protein from Streptococcus pyogenes)
- Grna (30 kDa, RNA from Streptococcus pyogenes)
- Ts (7 kDa, DNA from Escherichia phage Lambda)
- Nts (6 kDa, DNA from Escherichia phage Lambda)
SpRY-Cas9:gRNA complex targeting TAC PAM DNA with 18 bp R-loop
Resolution: 3.08 Å
EM Method: Single-particle
Fitted PDBs: 8t6x
Q-score: 0.412
Hibshman GN, Bravo JPK, Hooper MM, Dangerfield TL, Zhang H, Finkelstein IJ, Johnson KA, Taylor DW
Nat Commun (2024) 15 pp. 3663-3663 [ Pubmed: 38688943 DOI: doi:10.1038/s41467-024-47830-3 ]
- Ternary complex of spry-cas9 with grna and nac pam dna after one minute of dna incubation with 13 bp r-loop (211 kDa, Complex from Streptococcus pyogenes)
- Ts (16 kDa, DNA from Escherichia phage Lambda)
- Magnesium ion (24 Da, Ligand)
- Crispr-associated endonuclease cas9/csn1 (159 kDa, Protein from Streptococcus pyogenes)
- Grna (31 kDa, RNA from Streptococcus pyogenes)
- Nts (16 kDa, DNA from Escherichia phage Lambda)
SpRY-Cas9:gRNA complex bound to non-target DNA with 1 bp R-loop
Resolution: 2.88 Å
EM Method: Single-particle
Fitted PDBs: 8t6y
Q-score: 0.465
Hibshman GN, Bravo JPK, Hooper MM, Dangerfield TL, Zhang H, Finkelstein IJ, Johnson KA, Taylor DW
Nat Commun (2024) 15 pp. 3663-3663 [ Pubmed: 38688943 DOI: doi:10.1038/s41467-024-47830-3 ]
- Grna (28 kDa, RNA from Streptococcus pyogenes)
- Nts (3 kDa, DNA from Escherichia phage Lambda)
- Ts (3 kDa, DNA from Escherichia phage Lambda)
- Crispr-associated endonuclease cas9/csn1 (159 kDa, Protein from Streptococcus pyogenes)
- Ternary complex of spry-cas9 with grna and non-target dna with 1 bp r-loop (211 kDa, Complex from Streptococcus pyogenes)